Fig. 5: Cells clustered by H3K27me3 recapitulate their distributions clustered by gene expression.

a UMAP embedding showing the clustering of cells from H3K27me3 scSET-seq by H3K27me3 signals. Each dot represented a single cell. The cluster with a majority of proximal cells was defined as the Proxi cluster, with abundant distal cells was defined as the Dista cluster, and with mixed proximal and distal cells was defined as the Mix cluster. b Colored map showing the relative position of cells to Wnt3a beads in H3K27me3 scSET-seq. Cells proximal to beads were marked garnet and distal to cells were marked cyan. c Line maps showing the paired daughter cells among cell clusters in H3K27me3 scSET-seq. Red lines indicated the paired cells were between Proxi and Dista cluster, green lines indicated the two daughter cells were between Proxi/Dista cluster and Mix cluster, and blue lines connected cells inside the same cluster. d Same as in a, except H3K4me3 scSET-seq was analyzed. e Same as in b, except H3K4me3 scSET-seq was analyzed. f Same as in c, except H3K4me3 scSET-seq was analyzed. g Sankey plots showing the cell identities classified by H3K27me3 and joint transcriptional profiles. Epi, cell clusters defined by epigenetic profiles. Exp, cell clusters identified by gene expression profiles. h Sankey plots showing the cell identities classified by H3K4me3 and joint transcriptional profiles. i Bar graph showing the percentage of cells projected by gene expression profiles from H3K27me3 scSET-seq. Cell clusters identified by H3K27me3 were shown as the x-axis. Exp, the percentage of cells classified by corresponding gene expression was used as a negative control. P values were calculated by Student’s t-test, two-sided. j Same as in i, except H3K4me3 scSET-seq data were analyzed. N.S. Not Significant. Source data are provided as a Source Data file.